Comparative genomics of ParaHox clusters of teleost fishes: gene cluster breakup and the retention of gene sets following whole genome duplications

doi:10.1186/1471-2164-8-312

BMC Genomics

Volume 8

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Research article

Comparative genomics of ParaHox clusters of teleost fishes: gene cluster breakup and the retention of gene sets following whole genome duplications

Nicol Siegel¹ , Simone Hoegg¹ , Walter Salzburger¹^,2 , Ingo Braasch¹^,3 and Axel Meyer¹

¹Lehrstuhl für Zoologie und Evolutionsbiologie, Department of Biology, University of Konstanz, Konstanz, Germany

²Department of Ecology and Evolution (DEE), University of Lausanne UNIL Sorge, Le Biophore, Lausanne, Switzerland

³Physiological Chemistry I, Biozentrum, University of Würzburg, Germany

author email corresponding author email

BMC Genomics 2007, 8:312doi:10.1186/1471-2164-8-312


Published:	6 September 2007

Additional files

Additional file 1:

Location of the genes of the C1 and C2 ParaHox paralogon. List of the genes used for the computation of the trees via PHYML and Mr. Bayes analyses, including the orientation of the gene (→ means 5'-3'; ← means 3'-5' orientation) and the database the DNA sequence was taken from. All sequences from NCBI (National Center for Biotechnology Information) [52] were taken as annotated there; the sequences from the other databases (MGP (Medaka Genome Project) [65], version 200506) and Ensembl [66]T. nigroviridis version Tetraodon7, T. rubripes version Fugu4.0, O. latipes version Medaka1, G. aculeatus version BroadS1,D. rerio version Zv6) were annotated by hand.

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Additional file 2:

Comparison of the genome size and the size of the C1, C2, D1 and D2 ParaHox paralogons. All genome size estimations, except A. burtoni from the animal genome size database [57], A. burtoni estimation from (Lang et al. 2006); size estimation of the D1 and D2 cluster from (Braasch et al. 2006). The gene flt4 is not included in this analysis.

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